SEDIMENT DISPERSION IN SALMON SPAWNING STREAMS: THE INFLUENCE OF FLOODS AND SALMON REDD CONSTRUCTION1

ABSTRACT: Magnetically tagged particles were used to investigate the effects of sockeye salmon (Oncorhynchus nerka) and floods on the dispersion of coarse bed material in the Stuart‐Takla region, British Columbia, Canada. The dominant annual sediment transporting event in the channels is the snowmelt flood events, with lesser activity usually accomplished during summer floods. Annually in August, the channel bed material is reworked by the Early Stuart sockeye salmon spawning, as the fish excavate the streambed to deposit and bury their eggs. These nesting cavities are called redds. Results from 67 tracer recovery experiments over five years were highly variable, subject to the magnitude of floods and the returning population of salmon. Overall, the depositional pattern from nival flood events usually demonstrated a high degree of clast mobilization, long travel distances (up to 150 m), and mean depths of burial up to 18 cm. Summer flood events showed somewhat lower rates of mobilization, distances of travel, and depths of burial. Although the fish did not move the tracers very far, their effect on the bed was generally quite pervasive ‐ up to 100 percent of the clasts were mobilized, and the depth of burial was considerable (mean burial depths up to 14 cm). The amount of vertical mixing of sediment by salmon was often on the same order of magnitude as flood events. The significant vertical mixing of sediments by the fish has important implications for the mobility of sediment in the stream. Since any armoring layer formed during high flows throughout the year is subject to the bioturbation of salmon, this suggests that the transport threshold in the creeks remains relatively low. Salmon likely play an integral role in the sediment transport dynamics and annual sediment budget of the lower reaches of these creeks.     

REVIEW AND ANALYSIS OF METHODS FOR QUANTIFYING INSTREAM FLOW REQUIREMENTS1

ABSTRACT: Present guidelines for selecting a method to determine instream flow requirements and evaluating the validity of the results from a particular method are insufficient. This paper contributes to the efforts of researchers to develop a guide and critique for instream flow methods. A review of instreani flow methods and recommendations for their application is supplemented by a summary of a comparison of four independent analyses. The four analyses: the Physical Habitat Simulation System approach of the Instream Flow Incremental Methodology by the U.S. Fish and Wildlife Service, the Montana Method by Tennant, and two methods by Orsborn (Maximum Spawning Area Flow and Maximum Spawning Area) represent resource intensive and simplistic data collection and analysis methods. Each analysis was used to independently determine flows to support spawning by chinook salmon (Oncorhynchus tshawytscha) in Willow Creek, Alaska. Results of these analyses indicate that each method can be used independently or collectively to generate instream flow recommendations, if calibrated to the site or area studied. Once adjusted to the species and basin of interest, methods similar to the Montana and two Orsborn methods should be used to determine flow recommendations for areas where competition for water is minimal. The Instream Flow Incremental Methodology or similar methods should be applied when competition for water is keen or when detailed evaluations of the responses of species/life phases to flow variations are required.     

A model of the emergence of infectious pancreatic necrosis virus in Scottish salmon farms 1996–2003

Infectious pancreatic necrosis virus (IPNV) is an increasingly common pathogen in farmed Scottish Atlantic salmon; over 80% of marine sites are now infected, although most do not suffer clinical disease. The increasing prevalence of this pathogen in farms over the period 1996–2003 is modelled using a simple susceptible–infected (SI) epidemic model. Because salmon production approximately doubled over this period, population-dependent and -independent transmission models are compared. The model generates mean R₀ (increase ratio) of 1.41 in fresh and 1.45 in marine water farms at the national level; higher values apply with time under population-dependent transmission (1.58, freshwater, 1.80 marine by 2003). Regional differences in R₀ are mostly moderate, indicating similar regional processes in spite of substantial difference in prevalence. Prevalence of IPNV for marine sites was further increased by the use of smolts (young salmon) from multiple freshwater sources. The model suggests that prevalence is entering dynamic equilibrium and will stabilise or only increase slowly as population increases. Cutting freshwater transmission is the most effective single strategy at reducing IPNV prevalence, but a combination of strategies (including reducing the number of sources of smolts) is better and indeed is required for eradication. Eradication would require cuts in transmission of at least 30–45% and this is unlikely to be practicable.     

Levels and congener profiles of PCDD/Fs and dioxin-like PCBs in Baltic wild salmon (Salmo salar)

Baltic salmons were caught from two Latvian rivers during the spawning seasons of 2010 and 2011 for the determination of seventeen 2,3,7,8-chlorine-substituted dibenzo-p-dioxins and dibenzofurans (PCDD/Fs) and 12 dioxin-like polychlorinated biphenyls (PCBs). A partially automated clean-up procedure was used for sample preparation, followed by capillary gas chromatography hyphenated to high-resolution mass spectrometry. The concentrations of PCDD/F&;PCB-TEQ ranged from 6.6 to 18.2?ng?kg^?1 fresh weight and this confirms the previous reports of relatively high concentrations of PCDD/Fs, and especially of dioxin-like PCBs in Baltic wild salmon, in most samples exceeding maximum recommended levels (MRLs) in toxicity equivalency quotients (PCDD/F-PCB-TEQ) of the World Health Organization (WHO 1998) according to EC COMMISSION REGULATION No 1881/2006. The results suggest that high consumption of Baltic wild salmon could entail the risk of exceeding the TDI for adults and teenagers. Extra care must be taken when Baltic wild salmon is included in childrens's diet to avoid exceedance of the recommended TDI of 4?pg?kg^?1 body weight for this group.     

Relative Effects of Climate and Water Use on Base‐Flow Trends in the Lower Klamath Basin1

Abstract: Since the 1940s, snow water equivalent (SWE) has decreased throughout the Pacific Northwest, while water use has increased. Climate has been proposed as the primary cause of base‐flow decline in the Scott River, an important coho salmon rearing tributary in the Klamath Basin. We took a comparative‐basin approach to estimating the relative contributions of climatic and non‐climatic factors to this decline. We used permutation tests to compare discharge in 5 streams and 16 snow courses between “historic” (1942‐1976) and “modern” (1977‐2005) time periods, defined by cool and warm phases, respectively, of the Pacific Decadal Oscillation. April 1 SWE decreased significantly at most snow courses lower than 1,800 m in elevation and increased slightly at higher elevations. Correspondingly, base flow decreased significantly in the two streams with the lowest latitude‐adjusted elevation and increased slightly in two higher‐elevation streams. Base‐flow decline in the Scott River, the only study stream heavily utilized for irrigation, was larger than that in all other streams and larger than predicted by elevation. Based on comparison with a neighboring stream draining wilderness, we estimate that 39% of the observed 10 Mm³ decline in July 1‐October 22 discharge in the Scott River is explained by regional‐scale climatic factors. The remainder of the decline is attributable to local factors, which include an increase in irrigation withdrawal from 48 to 103 Mm³/year since the 1950s.     

Managing Water to Protect Fish: A Review of California’s Environmental Water Account, 2001–2005

The Sacramento-San Joaquin Delta, the landward reach of the San Francisco Estuary, provides habitat for threatened delta smelt, endangered winter-run Chinook salmon, and other species of concern. It is also the location of huge freshwater diversion facilities that entrain large numbers of fish. Reducing the entrainment of listed fishes into these facilities has required curtailment of pumping, reducing the reliability of water deliveries. We reviewed the first 5 years (2001–2005) of the Environmental Water Account (EWA), a program instituted to resolve conflicts between protecting listed fishes and providing a reliable water supply. The EWA provided fishery agencies with control over 0.2–0.4 km³ of water to be used for fish protection at no cost to users of exported water, and fish agencies guaranteed no disruption of water supply for fish protection. The EWA was successful in reducing uncertainty in water supply; however, its contribution to the recovery of listed fishes was unclear. We estimated the effectiveness of the EWA to be modest, increasing the survival of winter-run Chinook salmon by 0–6% (dependent on prescreen mortality), adult delta smelt by 0–1%, and juvenile delta smelt by 2–4%. Allocating EWA water for a single life stage of one species could provide larger gains in survival. An optimally allocated EWA of equal size to the median of the first 5 years could increase abundance of juvenile delta smelt up to 7% in the springs of dry years. If the EWA is to become a long-term program, estimates of efficacy should be refined. If the program is to be held accountable for quantitative increases in fish populations, it will be necessary to integrate scientific, possibly experimental, approaches.     

Contaminant exposure in outmigrant juvenile salmon from Pacific Northwest estuaries of the United States

To better understand the dynamics of contaminant uptake in outmigrant juvenile salmon in the Pacific Northwest, concentrations of polychlorinated biphenyls (PCBs), DDTs, polycylic aromatic hydrocarbons (PAHs) and organochlorine pesticides were measured in tissues and prey of juvenile chinook and coho salmon from several estuaries and hatcheries in the US Pacific Northwest. PCBs, DDTs, and PAHs were found in tissues (whole bodies or bile) and stomach contents of chinook and coho salmon sampled from all estuaries, as well as in chinook salmon from hatcheries. Organochlorine pesticides were detected less frequently. Of the two species sampled, chinook salmon had the highest whole body contaminant concentrations, typically 2--5 times higher than coho salmon from the same sites. In comparison to estuarine chinook salmon, body burdens of PCBs and DDTs in hatchery chinook were relatively high, in part because of the high lipid content of the hatchery fish. Concentrations of PCBs were highest in chinook salmon from the Duwamish Estuary, the Columbia River and Yaquina Bay, exceeding the NOAA Fisheries' estimated threshold for adverse health effects of 2400 ng/g lipid. Concentrations of DDTs were especially high in juvenile chinook salmon from the Columbia River and Nisqually Estuary; concentrations of PAH metabolites in bile were highest in chinook salmon from the Duwamish Estuary and Grays Harbor. Juvenile chinook salmon are likely absorbing some contaminants during estuarine residence through their prey, as PCBs, PAHs, and DDTs were consistently present in stomach contents, at concentrations significantly correlated with contaminant body burdens in fish from the same sites.